Okay, I bought a bike last year with Dura-Ace 7900 and I'm really frustrated with the shifting, mostly in the front. It's a compact crank and a wide 11-28 cassette. I have two problems. The big one is that on upshifts I notice that sometimes the chain goes up to the big chainring but the links are not seated properly in the chainring. They are riding up about half the chain height. I'm not sure how it's doing that, but it is. When the first part of the shift gets about at the 3 o'clock position the chain finally clanks into position.

On downshifts I experience sort of the opposite problem. It shifts down fine, and I think it settles okay in the chainrings, but when the part of the chain that first shifted down gets to also about 3 o'clock or a little bit lower the chain fully clicks into place and the bottom side rattles, or oscillates for a little while.

Any ideas what is going wrong or how to fix it? I've installed a new chain. I've tried following all the procedures for adjusting the derailleur. No luck so far. It almost seems to me the chainrings aren't aligned as they should be or something like that, in order for this to happen.

Unfortunately bikeforums/youtube combination kind of hosed up the videos by ending or starting too early in the transcoding process. If you go to the actual youtube links you can see the issue a little better. If it still doesn't make sense I'll update the videos. Thanks.

Upshift problem:

Downshift problem: